Locus 2009

Sequence ID 2R_DroMel_CAF1
Location 7,558,789 – 7,558,884
Length 95
Max. P 0.741736
window3320

overview

Window 0

Location 7,558,789 – 7,558,884
Length 95
Sequences 4
Columns 100
Reading direction reverse
Mean pairwise identity 83.05
Mean single sequence MFE -19.08
Consensus MFE -10.94
Energy contribution -11.82
Covariance contribution 0.88
Combinations/Pair 1.06
Mean z-score -2.38
Structure conservation index 0.57
SVM decision value 0.45
SVM RNA-class probability 0.741736
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7558789 95 - 20766785
CAGACACAGACGUUUUAAAUUCGGCC----AAAAG-GGCAGACACAACUAAUUAUCCUUUGCGCAAUAAAAAAAAAGGAUAACAUAAGCGAUUUAACACG
..........(((.((((((.(((((----.....-)))............(((((((((.............)))))))))......)))))))).))) ( -18.42)
>DroSec_CAF1 5298 86 - 1
------CAGACGUUUUAAAUUCGGCC----AAAAG-GGCAGACACAACUAAUUAUCCUUUGCGCAAUAAA---AAAGGAUAACAGAAGCGAUUUAACACG
------....(((.((((((.(((((----.....-)))............(((((((((..........---)))))))))......)))))))).))) ( -18.70)
>DroEre_CAF1 5235 96 - 1
GAGACACAGACGUUCUCAUUUGAGCCUUCCAAAAA-GGCAGACACAACUAAUUAUCCUUUGCGCAUUAAA---AAAGGAUAACAGAAGCGAUUUAACACG
((((.((....)))))).((((.(((((.....))-)))............(((((((((..........---))))))))))))).............. ( -19.70)
>DroYak_CAF1 5289 97 - 1
CAGAUACAAACGUUUCAAAUUGGGCCUACCAAAAACAACAAUGACAACUAAUUAUCCUUUGCGCAUUAAA---AAAGGAUAACAGAAGCGAUUUAACACG
..........((((((...((((.....))))...................(((((((((..........---)))))))))..)))))).......... ( -19.50)
>consensus
CAGACACAGACGUUUUAAAUUCGGCC____AAAAA_GGCAGACACAACUAAUUAUCCUUUGCGCAAUAAA___AAAGGAUAACAGAAGCGAUUUAACACG
..........((((((.......(((..........)))............(((((((((.............)))))))))..)))))).......... (-10.94 = -11.82 +   0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:18:41 2006